Importing ArrayExpress datasets into R/Bioconductor

Por Kauffmann, Audrey, Rayner, Tim F., Parkinson, Helen, Kapushesky, Misha, Lukk, Margus, Brazma, Alvis, Huber, Wolfgang
Publicado em 2009

Mutational landscape of a chemically-induced mouse model of liver cancer

Por Connor, Frances, Rayner, Tim F., Aitken, Sarah J., Feig, Christine, Lukk, Margus, Santoyo-Lopez, Javier, Odom, Duncan T.
Publicado no J Hepatol (2018)

MAGETabulator, a suite of tools to support the microarray data format MAGE-TAB

Por Rayner, Tim F., Rezwan, Faisal Ibne, Lukk, Margus, Bradley, Xiangqun Zheng, Farne, Anna, Holloway, Ele, Malone, James, Williams, Eleanor, Parkinson, Helen
Publicado em 2009

Genome-wide methylation analyses of primary human leukocyte subsets identifies functionally important cell-type–specific hypomethylated regions

Por Zilbauer, Matthias, Rayner, Tim F., Clark, Christine, Coffey, Alison J., Joyce, Chris J., Palta, Priit, Palotie, Aarno, Lyons, Paul A., Smith, Kenneth G. C.
Publicado em 2013

Interplay of cis and trans mechanisms driving transcription factor binding and gene expression evolution

Por Wong, Emily S., Schmitt, Bianca M., Kazachenka, Anastasiya, Thybert, David, Redmond, Aisling, Connor, Frances, Rayner, Tim F., Feig, Christine, Ferguson-Smith, Anne C., Marioni, John C., Odom, Duncan T., Flicek, Paul
Publicado no Nat Commun (2017)

Novel expression signatures identified by transcriptional analysis of separated leucocyte subsets in systemic lupus erythematosus and vasculitis

Por Lyons, Paul A, McKinney, Eoin F, Rayner, Tim F, Hatton, Alexander, Woffendin, Hayley B, Koukoulaki, Maria, Freeman, Thomas C, Jayne, David R W, Chaudhry, Afzal N, Smith, Kenneth G C
Publicado em 2010

Gene expression profiling of CD8(+) T cells predicts prognosis in patients with Crohn disease and ulcerative colitis

Por Lee, James C., Lyons, Paul A., McKinney, Eoin F., Sowerby, John M., Carr, Edward J., Bredin, Francesca, Rickman, Hannah M., Ratlamwala, Huzefa, Hatton, Alexander, Rayner, Tim F., Parkes, Miles, Smith, Kenneth G.C.
Publicado em 2011

Foxp3(+) follicular regulatory T cells control T follicular helper cells and the germinal center response

Por Linterman, Michelle A., Pierson, Wim, Lee, Sau K., Kallies, Axel, Kawamoto, Shimpei, Rayner, Tim F., Srivastava, Monika, Divekar, Devina P., Beaton, Laura, Hogan, Jennifer J., Fagarasan, Sidonia, Liston, Adrian, Smith, Kenneth G. C., Vinuesa, Carola G.
Publicado em 2011

Enhancer Evolution across 20 Mammalian Species

Por Villar, Diego, Berthelot, Camille, Aldridge, Sarah, Rayner, Tim F., Lukk, Margus, Pignatelli, Miguel, Park, Thomas J., Deaville, Robert, Erichsen, Jonathan T., Jasinska, Anna J., Turner, James M.A., Bertelsen, Mads F., Murchison, Elizabeth P., Flicek, Paul, Odom, Duncan T.
Publicado no Cell (2015)

A defunctioning polymorphism in FCGR2B is associated with protection against malaria but susceptibility to systemic lupus erythematosus

Por Willcocks, Lisa C., Carr, Edward J., Niederer, Heather A., Rayner, Tim F., Williams, Thomas N., Yang, Wanling, Scott, J. Anthony G., Urban, Britta C., Peshu, Norbert, Vyse, Timothy J., Lau, Yu Lung, Lyons, Paul A., Smith, Kenneth G. C.
Publicado em 2010

MiR-210 is induced by Oct-2, regulates B-cells and inhibits autoantibody production()

Por Mok, Yingting, Schwierzeck, Vera, Thomas, David C., Vigorito, Elena, Rayner, Tim F., Jarvis, Lorna B., Prosser, Haydn M., Bradley, Allan, Withers, David R., Mårtensson, Inga-Lill, Corcoran, Lynn M., Blenkiron, Cherie, Miska, Eric A., Lyons, Paul A., Smith, Kenneth G.C.
Publicado em 2013

A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB

Por Rayner, Tim F, Rocca-Serra, Philippe, Spellman, Paul T, Causton, Helen C, Farne, Anna, Holloway, Ele, Irizarry, Rafael A, Liu, Junmin, Maier, Donald S, Miller, Michael, Petersen, Kjell, Quackenbush, John, Sherlock, Gavin, Stoeckert, Christian J, White, Joseph, Whetzel, Patricia L, Wymore, Farrell, Parkinson, Helen, Sarkans, Ugis, Ball, Catherine A, Brazma, Alvis
Publicado em 2006

Copy number, linkage disequilibrium and disease association in the FCGR locus

Por Niederer, Heather A., Willcocks, Lisa C., Rayner, Tim F., Yang, Wanling, Lau, Yu Lung, Williams, Thomas N., Scott, J. Anthony G., Urban, Britta C., Peshu, Norbert, Dunstan, Sarah J., Hien, Tran Tinh, Phu, Nguyen Hoan, Padyukov, Leonid, Gunnarsson, Iva, Svenungsson, Elisabet, Savage, Caroline O., Watts, Richard A., Lyons, Paul A., Clayton, David G., Smith, Kenneth G.C.
Publicado em 2010

ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression

Por Parkinson, Helen, Kapushesky, Misha, Kolesnikov, Nikolay, Rustici, Gabriella, Shojatalab, Mohammad, Abeygunawardena, Niran, Berube, Hugo, Dylag, Miroslaw, Emam, Ibrahim, Farne, Anna, Holloway, Ele, Lukk, Margus, Malone, James, Mani, Roby, Pilicheva, Ekaterina, Rayner, Tim F., Rezwan, Faisal, Sharma, Anjan, Williams, Eleanor, Bradley, Xiangqun Zheng, Adamusiak, Tomasz, Brandizi, Marco, Burdett, Tony, Coulson, Richard, Krestyaninova, Maria, Kurnosov, Pavel, Maguire, Eamonn, Neogi, Sudeshna Guha, Rocca-Serra, Philippe, Sansone, Susanna-Assunta, Sklyar, Nataliya, Zhao, Mengyao, Sarkans, Ugis, Brazma, Alvis
Publicado em 2009

Pervasive lesion segregation shapes cancer genome evolution

Por Aitken, Sarah J., Anderson, Craig J., Connor, Frances, Pich, Oriol, Sundaram, Vasavi, Feig, Christine, Rayner, Tim F., Lukk, Margus, Aitken, Stuart, Luft, Juliet, Kentepozidou, Elissavet, Arnedo-Pac, Claudia, Beentjes, Sjoerd V., Davies, Susan E., Drews, Ruben M., Ewing, Ailith, Kaiser, Vera B., Khamseh, Ava, López-Arribillaga, Erika, Redmond, Aisling M., Santoyo-Lopez, Javier, Sentís, Inés, Talmane, Lana, Yates, Andrew D., Semple, Colin A., López-Bigas, Núria, Flicek, Paul, Odom, Duncan T., Taylor, Martin S.
Publicado no Nature (2020)

Genetically Distinct Subsets within ANCA-Associated Vasculitis

Por Lyons, Paul A., Rayner, Tim F., Trivedi, Sapna, Holle, Julia U., Watts, Richard A., Jayne, David R.W., Baslund, Bo, Brenchley, Paul, Bruchfeld, Annette, Chaudhry, Afzal N., Tervaert, Jan Willem Cohen, Deloukas, Panos, Feighery, Conleth, Gross, Wolfgang L., Guillevin, Loic, Gunnarsson, Iva, P, Lorraine Harper M.R.C, Hrušková, Zdenka, Little, Mark A., Martorana, Davide, Neumann, Thomas, Ohlsson, Sophie, Padmanabhan, Sandosh, Pusey, Charles D., Salama, Alan D., Sanders, Jan-Stephan F., Savage, Caroline O., Segelmark, Mårten, Stegeman, Coen A., Tesař, Vladimir, Vaglio, Augusto, Wieczorek, Stefan, Wilde, Benjamin, Zwerina, Jochen, Rees, Andrew J., Clayton, David G., Smith, Kenneth G.C.
Publicado em 2012